I am looking to do TMM normalization in an experiment where you have to do pairwise comparisons between 20+ samples in replicates of three (A1, A2, A3 vs B1, B2, B3; A1, A2, A3 vs C1, C2, C3; B1, B2, B3 vs C1,C2, C3 and so on).
I was thinking that I should normalize all the samples together and then do pairwise comparisons.
I was wondering how I can get EdgeR to give me the TMM normalized values in a csv file.
Thanks!
I was thinking that I should normalize all the samples together and then do pairwise comparisons.
I was wondering how I can get EdgeR to give me the TMM normalized values in a csv file.
Thanks!
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